How to evaluate the ezyme function using molecular dynamics simulations or other theoretical methods?

I would like to assess few enzyme proteins among the organism to understand the difference in their actions. The structure was modelled using homology modeling and same enzyme having different...

04 May 2019 6,329 8 View

Submission of new ssDNA sequence to database-APTAMER.?

Dear Researchers, We synthesised a novel aptamer against a particular protein/peptide target. Its a ssDNA with 87 bp and we would like to submit it to any database such as NCBI. Can anyone tell me...

10 November 2018 295 1 View

Blood delivery or bbb penetration in vivo procedures?

Can anyone share simple procedure to evalute the brain delivery or blood brain barrier penetration of a molecule. We dont have much facilities so basic or simple procedures are welcome. We would...

08 September 2018 3,395 0 View

How to design an aptamer for peptide/protein in silico?

Hi, How i can design an aptamer for a particular protein/peptide in silico, which help to reduce SELEX time and costs.

03 April 2018 3,276 3 View

Mutations by molecular dynamics simulation?

07 August 2017 3,012 2 View

Docking and missing residues of proteins?

Is it necessary to add missing residues in proteins before performing docking and MD

08 September 2016 4,071 8 View

Molecular dynamics of Modeled protein?

What is the significance of doing MD of modelled proteins. ?

08 September 2016 1,989 3 View

How can i calculate water permeability using Gromacs?

06 July 2016 9,899 6 View

How to Select a PDB file from Protein Data Bank

08 September 2015 8,658 2 View

How to define energy minimization parameters for a cyclic peptide? GROMACS

how and what are the files need to be defined? any manual?

05 June 2015 2,947 7 View

Why does blocking with my immunogenic peptide cause nuclear fluorescence in ICC?

Hi all, I am validating a polyclonal antibody raised against human ANT4, through WB and ICC. In most of my controls, the antibody shows very little off-target binding, but when I pre-incubate the...

03 March 2021 5,999 3 View

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23 February 2021 4,014 3 View

How to reduce static electricity of powder after lyophilization?

I am working on synthesizing and then purifying peptides using the SPPS system. After purification of the peptide, the peptide powder is obtained using a freeze dryer. When measuring the powder,...

22 February 2021 10,099 5 View

Can we remove the fmoc group after peptide cleavage?

I have synthesized the peptide using Fmoc based solid phase peptide synthesis. Also I have cleaved the peptide from the resin and lyophilized it, but later realized that, I forgot to deprotect the...

21 February 2021 4,537 3 View

How T cells recognise non-peptide antigens?

This might sound very basic question, but please share with me an explanation of how the T cell is activated when the antigen is not a peptide? What happens? And what are the molecules involved in...

21 February 2021 564 3 View

Help with Amyloid beta detection protocol (western-blotting)?

Hi everyone, I am a first year PhD student working on amyloidosis. I would like some tips and tricks to crack efficiently my current nightmare, i.e. the western blotting of the Amyloid beta and...

11 February 2021 2,513 3 View

How to assing secondary structure to calculated peptide/protein having xyz file?

Hi, I have an optimized structure of some peptides and I would like to represent it as a secondary structure - cartoon. Ok, so server apps ask for pdb file (like Stride). I tried in different...

04 February 2021 517 3 View

Identical spectra for L- and D-peptides after they self-assemble?

Hi dear all, I need advice. I have two peptides with the same sequence but one consists of L-amino acids only and the other consists of D-amino acids only. when they self-assemble in aqueous...

03 February 2021 2,032 3 View

FLAG purification, elution doesn't have protein?

I am purifying a heterotetramer, with one subunit having a 1D4 tag and the other having a FLAG tag. I purified from Sf9 with HBS pH7.3 and 0.002%LMNG first with Anti-1D4 resin and got an adequate...

02 February 2021 3,860 1 View

How long can synthesized peptides using SPPS be stored? Storage Conditions?

I have been synthesizing peptides on resin beads. I am wondering what best storage method is there to store the beads after synthesis before cleaving. And how long can they be stored in that...

02 February 2021 5,636 5 View